Array 1 88381-89996 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAEHEX010000012.1 Salmonella enterica subsp. enterica serovar Infantis strain SI-35 NODE_12_length_105200_cov_3.627078, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 88381 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 88443 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 88504 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 88565 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 88626 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 88687 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 88748 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 88809 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 88870 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 88931 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 88992 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 89053 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 89114 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 89175 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 89236 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 89297 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 89358 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 89419 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 89481 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 89542 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 89603 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 89664 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 89725 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 89786 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 89847 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 89908 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 89969 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1099-2996 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAEHEX010000049.1 Salmonella enterica subsp. enterica serovar Infantis strain SI-35 NODE_49_length_38253_cov_3.404789, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================================== ================== 1099 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 1160 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 1221 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 1282 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 1344 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 1405 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 1466 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 1527 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 1588 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 1649 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 1710 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 1771 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 1832 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 1893 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 1954 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 2015 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 2076 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 2137 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 2198 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 2259 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 2317 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 2378 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 2439 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 2500 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 2561 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 2622 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 2683 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 2744 29 100.0 72 ............................. CGGCCAGCCATTTAAACAGCGCTGCAGCGGGGATAAACCGACAGGGTATATGAGCTTATACGTCATGAACCA 2845 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 2906 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 2967 29 93.1 0 A...........T................ | A [2993] ========== ====== ====== ====== ============================= ======================================================================== ================== 31 29 98.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:-0.07, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : GTGTTCCCCGCGCTAGCGGGGATAAACCG # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //